STAAR v0.9.6.1

README.md

@@ -28,13 +28,13 @@ docker pull zilinli/staarpipeline
 ## Usage
 Please see the <a href="docs/STAAR_manual.pdf">**STAAR** user manual</a> for detailed usage of STAAR package. Please see the <a href="https://htmlpreview.github.io/?https://github.com/xihaoli/STAAR/blob/master/docs/STAAR_vignette.html">**STAAR** tutorial</a> for an example of analyzing sequencing data using STAAR procedure. Please see the <a href="https://github.com/xihaoli/STAARpipeline-Tutorial">**STAARpipeline** tutorial</a> for a detailed example of analyzing sequencing data using STAAR and STAARpipeline.
 ## Data Availability
-The whole-genome individual functional annotation data assembled from a variety of sources and the computed annotation principal components are available at the [Functional Annotation of Variant - Online Resource (FAVOR)](http://favor.genohub.org) site.
+The whole-genome individual functional annotation data assembled from a variety of sources and the computed annotation principal components are available at the [Functional Annotation of Variant - Online Resource (FAVOR)](https://favor.genohub.org) site.
 ## Version
 The current version is 0.9.6.1 (January 24, 2022).
 ## Citation
 If you use **STAAR** for your work, please cite:
 
-Xihao Li*, Zilin Li*, Hufeng Zhou, Sheila M. Gaynor, Yaowu Liu, Han Chen, Ryan Sun, Rounak Dey, Donna K. Arnett, Stella Aslibekyan, Christie M. Ballantyne, Lawrence F. Bielak, John Blangero, Eric Boerwinkle, Donald W. Bowden, Jai G. Broome, Matthew P. Conomos, Adolfo Correa, L. Adrienne Cupples, Joanne E. Curran, Barry I. Freedman, Xiuqing Guo, George Hindy, Marguerite R. Irvin, Sharon L. R. Kardia, Sekar Kathiresan, Alyna T. Khan, Charles L. Kooperberg, Cathy C. Laurie, X. Shirley Liu, Michael C. Mahaney, Ani W. Manichaikul, Lisa W. Martin, Rasika A. Mathias, Stephen T. McGarvey, Braxton D. Mitchell, May E. Montasser, Jill E. Moore, Alanna C. Morrison, Jeffrey R. O'Connell, Nicholette D. Palmer, Akhil Pampana, Juan M. Peralta, Patricia A. Peyser, Bruce M. Psaty, Susan Redline, Kenneth M. Rice, Stephen S. Rich, Jennifer A. Smith, Hemant K. Tiwari, Michael Y. Tsai, Ramachandran S. Vasan, Fei Fei Wang, Daniel E. Weeks, Zhiping Weng, James G. Wilson, Lisa R. Yanek, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Lipids Working Group, Benjamin M. Neale, Shamil R. Sunyaev, Gonçalo R. Abecasis, Jerome I. Rotter, Cristen J. Willer, Gina M. Peloso, Pradeep Natarajan, & Xihong Lin. (2020). Dynamic incorporation of multiple in silico functional annotations empowers rare variant association analysis of large whole-genome sequencing studies at scale. _Nature Genetics_, _52_(9), 969-983. PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/32839606">32839606</a>. PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7483769/">PMC7483769</a>. DOI: <a href="https://doi.org/10.1038/s41588-020-0676-4">10.1038/s41588-020-0676-4</a>.
+Xihao Li*, Zilin Li*, Hufeng Zhou, Sheila M. Gaynor, Yaowu Liu, Han Chen, Ryan Sun, Rounak Dey, Donna K. Arnett, Stella Aslibekyan, Christie M. Ballantyne, Lawrence F. Bielak, John Blangero, Eric Boerwinkle, Donald W. Bowden, Jai G. Broome, Matthew P. Conomos, Adolfo Correa, L. Adrienne Cupples, Joanne E. Curran, Barry I. Freedman, Xiuqing Guo, George Hindy, Marguerite R. Irvin, Sharon L. R. Kardia, Sekar Kathiresan, Alyna T. Khan, Charles L. Kooperberg, Cathy C. Laurie, X. Shirley Liu, Michael C. Mahaney, Ani W. Manichaikul, Lisa W. Martin, Rasika A. Mathias, Stephen T. McGarvey, Braxton D. Mitchell, May E. Montasser, Jill E. Moore, Alanna C. Morrison, Jeffrey R. O'Connell, Nicholette D. Palmer, Akhil Pampana, Juan M. Peralta, Patricia A. Peyser, Bruce M. Psaty, Susan Redline, Kenneth M. Rice, Stephen S. Rich, Jennifer A. Smith, Hemant K. Tiwari, Michael Y. Tsai, Ramachandran S. Vasan, Fei Fei Wang, Daniel E. Weeks, Zhiping Weng, James G. Wilson, Lisa R. Yanek, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Lipids Working Group, Benjamin M. Neale, Shamil R. Sunyaev, Gonçalo R. Abecasis, Jerome I. Rotter, Cristen J. Willer, Gina M. Peloso, Pradeep Natarajan, & Xihong Lin. (2020). **Dynamic incorporation of multiple in silico functional annotations empowers rare variant association analysis of large whole-genome sequencing studies at scale**. _Nature Genetics_, _52_(9), 969-983. PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/32839606">32839606</a>. PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7483769/">PMC7483769</a>. DOI: <a href="https://doi.org/10.1038/s41588-020-0676-4">10.1038/s41588-020-0676-4</a>.
 
 Zilin Li*, Xihao Li*, Hufeng Zhou, Sheila M. Gaynor, Margaret S. Selvaraj, Theodore Arapoglou, Corbin Quick, Yaowu Liu, Han Chen, Ryan Sun, Rounak Dey, Donna K. Arnett, Lawrence F. Bielak, Joshua C. Bis, Thomas W. Blackwell, John Blangero, Eric Boerwinkle, Donald W. Bowden, Jennifer A. Brody, Brian E. Cade, Matthew P. Conomos, Adolfo Correa, L. Adrienne Cupples, Joanne E. Curran, Paul S. de Vries, Ravindranath Duggirala, Barry I. Freedman, Harald H. H. Göring, Xiuqing Guo, Rita R. Kalyani, Charles Kooperberg, Brian G. Kral, Leslie A. Lange, Ani Manichaikul, Lisa W. Martin, Braxton D. Mitchell, May E. Montasser, Alanna C. Morrison, Take Naseri, Jeffrey R. O’Connell, Nicholette D. Palmer, Patricia A. Peyser, Bruce M. Psaty, Laura M. Raffield, Susan Redline, Alexander P. Reiner, Muagututi‘a Sefuiva Reupena, Kenneth M. Rice, Stephen S. Rich, Jennifer A. Smith, Kent D. Taylor, Ramachandran S. Vasan, Daniel E. Weeks, James G. Wilson, Lisa R. Yanek, Wei Zhao, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Lipids Working Group, Jerome I. Rotter, Christen J. Willer, Pradeep Natarajan, Gina M. Peloso and Xihong Lin. (2021). **A framework for detecting noncoding rare variant associations of large-scale whole-genome sequencing studies**. _bioRxiv_. DOI: <a href="https://doi.org/10.1101/2021.11.05.467531">10.1101/2021.11.05.467531</a>.
 ## License